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Sora and Riku agree to take their Mark of Mastery exams in preparation of a new danger looming in the horizon. Those who fulfill the exam and become Keyblade Masters will be granted a new power. The two are tasked with traveling to worlds that had been previously ravaged by the Heartless and are stuck in a "sleeping" state, essentially disconnecting them from other worlds.

The game stores Achievements in the form of "Trophies" (viewable in your Report). Multiple playthroughs on different difficulty settings are required in order to obtain all the Trophies. Fortunately, Trophies carry over between saves created from New Game+.